Locus 392

Sequence ID	3R_DroMel_CAF1
Location	1,465,990 – 1,466,134
Length	144
Max. P	0.762732

overview

Window 7

Location	1,465,990 – 1,466,110
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.58
Mean single sequence MFE	-31.88
Consensus MFE	-26.75
Energy contribution	-27.75
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-1.54
Structure conservation index	0.84
SVM decision value	0.51
SVM RNA-class probability	0.762732
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1465990 120 - 27905053
CAACCAAGUUGUUAUCGUCUUCAGCAAGUAGGUUCGAGCAGCAACAUCCUCCAUUUCCAUACACCAUGGAUGCACUGCUCAACUAGGAGCACUCUCUGGUUUGACUGACGGGCUUGCCAU
.......((((..........))))..((((((((((((((...(((((..................)))))..))))))((((((((....)).))))))........))))))))... ( -32.47)
>DroSec_CAF1 38536 116 - 1
CAACCAAGUUGUUAUCGUCUUCAGCAAGUAGGUUCGAGCAGCAGCAUCCUCCAUUUCCAUACACCAUGGAUGCACUGCUCAACUAGGAGCACUCUCUGGUUUG----ACGGGCUUGCCAU
.......((((..........))))..((((((((((((((..((((((..................)))))).))))))((((((((....)).))))))..----..))))))))... ( -36.07)
>DroSim_CAF1 36813 116 - 1
CAACCAAGUUGUUAUCGUCUUCAGCAAGUAGGUUCGAGCAGCAGCAUCCUCCAUUUCCAUACACCAUGGAUGCACUGCUCAACUAGGAGCACUCUCUGGUUUG----ACGGGCUUGCCAU
.......((((..........))))..((((((((((((((..((((((..................)))))).))))))((((((((....)).))))))..----..))))))))... ( -36.07)
>DroEre_CAF1 40258 116 - 1
CAACCAAGUUGUUAUCGUCUUCAGCAAAUAGAUUCGAGCAGCAACAUCCUCCAUUUCCAUACACCAUGGAUGCACUGCUCAACUAGGAGCAUUCUCUGGUUUG----ACGGGCUUGCCAU
....(((((.....(((((................((((((...(((((..................)))))..))))))(((((((......).)))))).)----))))))))).... ( -28.37)
>DroYak_CAF1 38659 116 - 1
CAACCAAGUUGUUAUCGUCUUCAGCAAAUAGAUUCGAGCAGCAACACCCUCCAUUUCCAUACACUAUGGAUGCACUGCUCAACUAGGAGCAUUCUCUGGUUUG----AAGGGCUUGCCAU
.......((((((.(((...((........))..)))..)))))).((((.((..((((((...)))))).....(((((......)))))..........))----.))))........ ( -26.40)
>consensus
CAACCAAGUUGUUAUCGUCUUCAGCAAGUAGGUUCGAGCAGCAACAUCCUCCAUUUCCAUACACCAUGGAUGCACUGCUCAACUAGGAGCACUCUCUGGUUUG____ACGGGCUUGCCAU
.......((((..........))))..((((((((((((((...(((((..................)))))..))))))((((((((....)).))))))........))))))))... (-26.75 = -27.75 +   1.00)

alignment

secondary structure

dotplot

Window 8

Location	1,466,030 – 1,466,134
Length	104
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	90.64
Mean single sequence MFE	-24.12
Consensus MFE	-20.52
Energy contribution	-20.04
Covariance contribution	-0.48
Combinations/Pair	1.09
Mean z-score	-1.43
Structure conservation index	0.85
SVM decision value	0.47
SVM RNA-class probability	0.749455
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1466030 104 - 27905053
CAUUAACAGCAU------CAGCAGCAUCGGCAACCAAGUUGUUAUCGUCUUCAGCAAGUAGGUUCGAGCAGCAACAUCCUCCAUUUCCAUACACCAUGGAUGCACUGCUC
........((..------..)).((....))((((.(.(((((.........))))).).)))).((((((...(((((..................)))))..)))))) ( -21.77)
>DroSec_CAF1 38572 110 - 1
CAUUAACAGCAUCAGCAUCAGCAGCAUCGGCAACCAAGUUGUUAUCGUCUUCAGCAAGUAGGUUCGAGCAGCAGCAUCCUCCAUUUCCAUACACCAUGGAUGCACUGCUC
...(((((((....((....)).((....))......))))))).....................((((((..((((((..................)))))).)))))) ( -26.97)
>DroSim_CAF1 36849 110 - 1
CAUUAACAGCAUCAGCAUCAGCAGCAUCGGCAACCAAGUUGUUAUCGUCUUCAGCAAGUAGGUUCGAGCAGCAGCAUCCUCCAUUUCCAUACACCAUGGAUGCACUGCUC
...(((((((....((....)).((....))......))))))).....................((((((..((((((..................)))))).)))))) ( -26.97)
>DroEre_CAF1 40294 110 - 1
CACUAACAGCAACAUCAGCAUCAGCAUCGGCAACCAAGUUGUUAUCGUCUUCAGCAAAUAGAUUCGAGCAGCAACAUCCUCCAUUUCCAUACACCAUGGAUGCACUGCUC
...(((((((.......((....))...(....)...)))))))..((((.........))))..((((((...(((((..................)))))..)))))) ( -22.77)
>DroYak_CAF1 38695 104 - 1
AAUUGACA---ACAUCAGC---AGCAUCGGCAACCAAGUUGUUAUCGUCUUCAGCAAAUAGAUUCGAGCAGCAACACCCUCCAUUUCCAUACACUAUGGAUGCACUGCUC
........---.....(((---((.....(((.....((((((.(((...((........))..)))..))))))..........((((((...))))))))).))))). ( -22.10)
>consensus
CAUUAACAGCAUCAGCAGCAGCAGCAUCGGCAACCAAGUUGUUAUCGUCUUCAGCAAGUAGGUUCGAGCAGCAACAUCCUCCAUUUCCAUACACCAUGGAUGCACUGCUC
......................((((...(((.....((((((.(((...((........))..)))..))))))..........(((((.....))))))))..)))). (-20.52 = -20.04 +  -0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:08 2006